Package: Category

Version: 2.19.0

Command: D:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD check --no-vignettes --timings Category_2.19.0.tar.gz

StartedAt: 2011-05-05 16:21:24 -0700 (Thu, 05 May 2011)

EndedAt: 2011-05-05 16:28:00 -0700 (Thu, 05 May 2011)

EllapsedTime: 396.8 seconds

RetCode: 0

Status:  OK

CheckDir: Category.Rcheck

Warnings: 0

* using log directory 'D:/biocbld/bbs-2.9-bioc/meat/Category.Rcheck'
* using R version 2.14.0 Under development (unstable) (2011-04-17 r55484)
* using platform: x86_64-pc-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'Category/DESCRIPTION' ... OK
* this is package 'Category' version '2.19.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'Category' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the name space can be loaded with stated dependencies ... OK
* checking whether the name space can be unloaded cleanly ... OK
* checking for unstated dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK

* installing *source* package 'Category' ...
** R
** inst
** preparing package for lazy loading
Loading required package: Biobase

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'browseVignettes()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation("pkgname")'.

** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   'Category.Rnw' 
   'ChromBand.Rnw' 
** testing if installed package can be loaded

* DONE (Category)

name	user	system	elapsed
ChrBandTree-class	22.91	0.11	28.46
ChrMapHyperGParams-class	0	0	0
ChrMapHyperGResult-class	0	0	0
ChrMapLinearMParams-class	0	0	0
ChrMapLinearMResult-class	0	0	0
DatPkg-class	0.08	0.00	0.08
HyperGResult-accessors	0.97	0.07	97.85
LinearMParams-class	0	0	0
LinearMResult-class	0	0	0
LinearMResultBase-class	0.02	0.00	0.01
MAPAmat	14.54	0.14	17.96
applyByCategory	0.02	0.00	0.01
cateGOryMatrix	0.47	0.00	19.80
cb_parse_band_Hs	0	0	0
cb_parse_band_Mm	0	0	0
findAMstats	0	0	0
getPathNames	0.18	0.00	0.18
gseattperm	4.73	0.04	8.76
makeChrBandGraph	12.38	0.03	12.72
makeEBcontr	0.42	0.02	0.47
probes2MAP	0.29	0.00	0.30
probes2Path	0.08	0.02	0.14
ttperm	0.03	0.00	0.03